PeptideAtlas peptide database

PeptideAtlas peptide database provides a comprehensive repository of peptides identified by tandem mass spectrometry (MS/MS) and maps validated peptide identifications to eukaryotic genomes to support proteomic and genomic integration.

Key Features:

• Multi-Organism Compendium: Contains peptide identifications for multiple eukaryotic organisms including human, mouse, yeast, and Drosophila.
• Mass spectrometer data collection and search: Collects mass spectrometer output files and searches them against protein sequence databases using search engines.
• Statistical validation: Applies a uniform analytic process to statistically validate peptide identifications across experiments.
• Genomic mapping: Maps identified peptide sequences to corresponding eukaryotic genomic sequences.

Scientific Applications:

• Proteomic research: Provides a validated set of peptide identifications for studies of protein expression and post-translational modifications.
• Comparative studies: Enables comparison of peptide identifications across experiments, laboratories, and instruments via uniform validation.
• Genomic integration: Supports integration of proteomic data with genomic sequences to inform gene annotation and protein–gene relationships.

Methodology:

Collection of MS/MS data from proteomics experiments, database searching of mass spectrometer output files against protein sequences using search engines, statistical validation of peptide identifications, and mapping of validated peptides to eukaryotic genomes.